Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma12g00705 ATGTCGTCGAGTAGACCCAGCCGGTCCACAAACACAGGAGGATCCTCCTCCTCACAATCAAGACACACTTCAAGAATTCTCGCTCAAACCTCCATAGACGCAAAGCTCCACTCCCACTTCCAACACTCCAATTCTTCATTCGACTACTCTACTTCAATCCATCTCACAGCCAACCCACCATCAACCACCACCACCGCCACCACCACCGCATACCTCCACCACATCCAACGCTCCAACCTCATCCAACCCTTCGGCTGCCTCATAGCCCTCCACCCAACCACCCACAAACTCATCGCCTTCAGCCAAAACGCCCCTGAATTCCTCACCACAGTCTCCCACACCGTCCCCACCATCTCCGACCGCCCCGTCCTCGCCTTCGGCACCACCCTCCATTCCATCTTCACCCCTCCCACCGCCACAGCCCTCCTCAAAGCTCTAGCCTTTCCCGACGTCACTCTCCTCAACCCCATTCTCGCCCACTCCAAATCCTCACAAAAGCCCTTTTACGCCATTCTCCACCGTGTTACCGGCAGCCTCATCATCGACTTCGAACCCGTCAACCCCGACGAAGTCCCCGTCACCGCAGCCGGTGCTCTCCAATCATATAAACTCGCAGCCAAAGCCATCACTCGCCTCCAAGCTCTCCCTAGTGGGAGCATGGCCAGGCTTTGTGACACCATGGTTCAAGAAGTGTTTGAACTCACAGGATATGACCGAGTCATGGCATATAAATTCCATGATGATGATCATGGGGAGGTGTTCTCTGAGGTTACAAAGCCTGGACTTGACCCATATCTTGGATTGCATTATCCAGCCACTGACATCCCTCAAGCTGCAAGATTTTTATTCATGAAGAACAAGGTTAGAATGATTGTGGACTGCAAAGCCAAGCATGTCAAGGTGATTCAAGACCCAAATCTTGAGTTTGACTTGACATTATGTGGGTCAACTTTGAGAGCTCCTCATAGTTGCCATTTACAATACATGGAGAATATGGATTCAATTGCATCTTTAGTTATGGCAATTGTGGTGAATGAGGAAGAACATGAAGAACAATTTGATCATAAAAACAAGAGAAAAAGATTATGGGGTTTGGTGGTTTGTCATAACACAACTCCAAGATTTGTTCCATTTCCTCTTAGATATGCATGTGAGTTTCTAGCTCAAGTGTTTGCCATTCATGTCAACAAAGAATTGGAATTGGAGAATCAAATTTTGGAGAAGAATATCTTAAGAACTCAAACGCTTTTGTGTGATATGTTGATGCGTGATGCACCATTAGGGATTGTGTCAAGGAGCCCTAATATAATGGATCTTGTGAAGTCAGATGGGGCTGCATTGTTGTACAATGATAAGGTATGGAGATTAGGGATGACTCCTAATGATTTTGAGCTTCATGATATTGCTTCATGGATTTTGGAGTATCATGTGGATTCTACTGGATTGAGTACGGATAGCTTGTACGATGCGGGGTACCATGGTGCGGTTGCTCTAGGAGACGGCGTGTGTGGGATGGCGGCGGTGAGGCTAGGTTGCAACGACATGATTTTTTGGTTCCGATCACACGCTGCATCGGAAATTAGGTGGGGCGGGGCGAAGCATGAGGCGGGTGAGAAAGATGATGGAAGGAGAATGCATCCTAGGTCATCTTTCAAGGCTTTTCTTGAAGTGGTTAAGACAAGGAGTTTGCCTTGGAAGGACTTTGAAATGGATGCTATTCATTCTTTGCAGCTTATACTAAGAAACACTTACAAAGATAAAGAGATTAATAAGAGTTCAATACAATCAACACTTAGTGACCTCAAAATTGATGGGAGGCAAGAAATTGAATCAGTGACATGTGAGATGGTGAGGTTGATTGAAACGGCTAGTGTTCCAATTTTGGCTGTTGATGTGGATGGGCTCGTTAATGGGTGGAACTCAAAAATTGCTGAATTGACTGGAATTTGTGTTGACAAGGCTATTGGCAAGCATTTGTTGACATTGGTGGAAGATTCTTCATTAGAAACTGTGAAGAAGATGTTGTTCTTGGCCTTGCAAGGCCAAGAGGAGAAAGACGTCCAATTTGAGATAAAAACACAAGGCTCACACATGGAATCAAGCTCAATCAGCCTAATAGTAAATGCATGTGCAAGCAAGGACTTGTGTGAGAACGTAGTGGGAGTGTGCTTCGTAGCACAAGACATCACCCATGAAAAGAAAGTGATGGACAAGTTCACAAAATTACAAGGCGATTACAAAGCCATAGTACAAAACCCCAACCCACTAATCCCTCCAATATTTGGGGTAGACGAATTCGGTTGGTGCACAGAGTGGAACTTAGCAATGGCAAATCTAAGTGGATGGTCAAGAGAAGAAGTGCTGAACAAGATGCTTTTGGGGGAAGTGTTTGGGTCATGCTGCCATGTAAAGAACCAAGAAGCCTTTGTGAATCTTGGGATTGTTTTGAACAATGCCATGAGTGGCCAAGATTCTGATAAGATATCATTTGGGTTCTTTGGTAGAAGTGGGATGTTTGTGGAATGCCTTCTTTGTGTGAATAAGATAATGGATAGAGATGGGGAAGTGATTGGGGTTTTTTGCTTCTTGCAGCTTGCTAGCCAAGAGCTGCAACAAGCTTTGAATGTTCAAAAGTTGTGTGAGAGAACGGCTTTGAAAAGGTTGAAGGCTTTGGGATATATTAAGAGGCAGATCCAAAATCCTCTTTGTGGGATTGTTTTTTCGAGTAAAATGTTGGAGACATCTCAGTTGGGTGATGAACAGAACCAGCTTTTGCTTAATAGTGGCGATTGTCAAAGGCAGATCTTCAAGGTTCTTCATGATTCGGATGATCTTGATAAGATTATTGAAGGCTTCATTGATTTAGAAATGGTTGAGTTCTCATTACATGAAGCATTAGTGGTATCAATTAGTCAAGTAATGATGAAGAGCCAAGGAAAAGGTATCCAAATAGTAAACGAGGTAGCAGAAGAGATCATGTCCGAGACCTTATATGGAGACAGTTTGAGACTTCAACAAGTAATGGCTGATTTCTTGTTGATATCAATAAATTACACACCAACAGGAAGCAGCATTATGGTTTCAACAAATTTGACAAAGGATGAATCAGGGAAGTCAGTGAATCTTGTGCATGTGGAGTTCAGGATAACATATGTCGGTGGAGGCATGCCAGAATCGTTGTTGAATGAGATGTTTGGGAATGATGAGGAGGCGTCTGAAGAAGGTTTTAGCCTTCTCGTGAGTAGAAAGTTGGTGAAGTTGATGAATGGAGAGGTGAGATATGTGAGGGAAGCAGCCAATTCAACCTTCATCATAACTCTTCAGCTTGCTGCAGCTCATAAATAG 3345 44.28 MSSSRPSRSTNTGGSSSSQSRHTSRILAQTSIDAKLHSHFQHSNSSFDYSTSIHLTANPPSTTTTATTTAYLHHIQRSNLIQPFGCLIALHPTTHKLIAFSQNAPEFLTTVSHTVPTISDRPVLAFGTTLHSIFTPPTATALLKALAFPDVTLLNPILAHSKSSQKPFYAILHRVTGSLIIDFEPVNPDEVPVTAAGALQSYKLAAKAITRLQALPSGSMARLCDTMVQEVFELTGYDRVMAYKFHDDDHGEVFSEVTKPGLDPYLGLHYPATDIPQAARFLFMKNKVRMIVDCKAKHVKVIQDPNLEFDLTLCGSTLRAPHSCHLQYMENMDSIASLVMAIVVNEEEHEEQFDHKNKRKRLWGLVVCHNTTPRFVPFPLRYACEFLAQVFAIHVNKELELENQILEKNILRTQTLLCDMLMRDAPLGIVSRSPNIMDLVKSDGAALLYNDKVWRLGMTPNDFELHDIASWILEYHVDSTGLSTDSLYDAGYHGAVALGDGVCGMAAVRLGCNDMIFWFRSHAASEIRWGGAKHEAGEKDDGRRMHPRSSFKAFLEVVKTRSLPWKDFEMDAIHSLQLILRNTYKDKEINKSSIQSTLSDLKIDGRQEIESVTCEMVRLIETASVPILAVDVDGLVNGWNSKIAELTGICVDKAIGKHLLTLVEDSSLETVKKMLFLALQGQEEKDVQFEIKTQGSHMESSSISLIVNACASKDLCENVVGVCFVAQDITHEKKVMDKFTKLQGDYKAIVQNPNPLIPPIFGVDEFGWCTEWNLAMANLSGWSREEVLNKMLLGEVFGSCCHVKNQEAFVNLGIVLNNAMSGQDSDKISFGFFGRSGMFVECLLCVNKIMDRDGEVIGVFCFLQLASQELQQALNVQKLCERTALKRLKALGYIKRQIQNPLCGIVFSSKMLETSQLGDEQNQLLLNSGDCQRQIFKVLHDSDDLDKIIEGFIDLEMVEFSLHEALVVSISQVMMKSQGKGIQIVNEVAEEIMSETLYGDSLRLQQVMADFLLISINYTPTGSSIMVSTNLTKDESGKSVNLVHVEFRITYVGGGMPESLLNEMFGNDEEASEEGFSLLVSRKLVKLMNGEVRYVREAANSTFIITLQLAAAHK 1114
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
12 3888331 3894142 + CmaCh12G007050.1 Cma12g00705 305195

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma12g00705 1114 ProSitePatterns Phytochrome chromophore attachment site signature. 319 328 IPR013516 -
Cma12g00705 1114 ProSiteProfiles PAS repeat profile. 745 823 IPR000014 -
Cma12g00705 1114 SUPERFAMILY PYP-like sensor domain (PAS domain) 759 862 IPR035965 -
Cma12g00705 1114 SMART gaf_1 219 409 IPR003018 GO:0005515
Cma12g00705 1114 Gene3D - 951 1113 IPR036890 -
Cma12g00705 1114 SMART HKATPase_4 999 1111 IPR003594 -
Cma12g00705 1114 SUPERFAMILY PYP-like sensor domain (PAS domain) 75 189 IPR035965 -
Cma12g00705 1114 SUPERFAMILY GAF domain-like 199 396 - -
Cma12g00705 1114 Gene3D - 200 560 IPR029016 -
Cma12g00705 1114 CDD PAS 623 729 IPR000014 -
Cma12g00705 1114 Gene3D PAS domain 74 322 - -
Cma12g00705 1114 PRINTS Phytochrome signature 134 156 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 234 253 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 319 340 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 429 449 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 514 533 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 547 565 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 615 631 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 634 649 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 707 724 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 PRINTS Phytochrome signature 727 747 IPR001294 GO:0006355|GO:0009584
Cma12g00705 1114 Coils Coil 396 416 - -
Cma12g00705 1114 SUPERFAMILY GAF domain-like 407 584 - -
Cma12g00705 1114 Pfam Phytochrome region 412 587 IPR013515 GO:0006355|GO:0009584
Cma12g00705 1114 SMART pas_2 614 680 IPR000014 -
Cma12g00705 1114 SMART pas_2 744 814 IPR000014 -
Cma12g00705 1114 Pfam GAF domain 220 399 IPR003018 GO:0005515
Cma12g00705 1114 Gene3D PAS domain 614 744 - -
Cma12g00705 1114 Pfam Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase 999 1109 IPR003594 -
Cma12g00705 1114 SUPERFAMILY ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 944 1107 IPR036890 -
Cma12g00705 1114 CDD PAS 756 864 IPR000014 -
Cma12g00705 1114 Pfam PAS fold 70 186 IPR013654 GO:0006355
Cma12g00705 1114 Gene3D - 404 577 IPR043150 -
Cma12g00705 1114 PANTHER PHYTOCHROME A 2 1112 - -
Cma12g00705 1114 MobiDBLite consensus disorder prediction 1 24 - -
Cma12g00705 1114 PIRSF Phytochrome_conventional 1 1114 IPR012129 GO:0006355|GO:0009585|GO:0009881|GO:0017006|GO:0042803
Cma12g00705 1114 ProSiteProfiles Histidine kinase domain profile. 893 1111 IPR005467 -
Cma12g00705 1114 SUPERFAMILY PYP-like sensor domain (PAS domain) 618 725 IPR035965 -
Cma12g00705 1114 ProSiteProfiles Phytochrome chromophore attachment site domain profile. 219 389 IPR016132 -
Cma12g00705 1114 Pfam PAS fold 615 729 IPR013767 GO:0006355
Cma12g00705 1114 Pfam PAS fold 745 864 IPR013767 GO:0006355
Cma12g00705 1114 Gene3D PAS domain 758 871 - -
Cma12g00705 1114 ProSiteProfiles PAS repeat profile. 612 682 IPR000014 -
Cma12g00705 1114 PANTHER TWO-COMPONENT HISTIDINE KINASE 2 1112 - -
Cma12g00705 1114 TIGRFAM sensory_box: PAS domain S-box protein 619 735 IPR000014 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma12g00705 K12120 PHYA; phytochrome A - csv:101219585 1812.73
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma12g00705 Cma-Chr12:3888331 Cma19g00854 Cma-Chr19:8014444 0 dispersed
Cma12g00705 Cma-Chr12:3888331 Cma05g00948 Cma-Chr5:7645389 0 wgd
Cma12g00705 Cma-Chr12:3888331 Cma05g00948 Cma-Chr5:7645389 0 wgd
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cma06g00120 . 5 1218 Histidine Kinase Gene Family AT2G17820 63.3 0.0e+00 1425.2
Cma16g01243 . 102 1255 Histidine Kinase Gene Family AT2G17820 64.9 0.0e+00 1414.8
Cma04g00016 . 28 1012 Histidine Kinase Gene Family AT2G01830 70.5 0.0e+00 1325.8
Cma15g00887 CST 20 979 Histidine Kinase Gene Family AT2G01830 72.0 0.0e+00 1303.5
Cma04g02142 CST 23 992 Histidine Kinase Gene Family AT2G01830 69.8 0.0e+00 1276.9
Cma17g01443 . 102 1060 Histidine Kinase Gene Family AT2G01830 52.7 7.7e-276 947.6
Cma11g01285 . 280 1223 Histidine Kinase Gene Family AT2G01830 53.8 1.9e-274 943.0
Cma20g00673 . 302 1245 Histidine Kinase Gene Family AT2G01830 52.9 7.7e-268 921.0
Cma08g00179 . 51 983 Histidine Kinase Gene Family AT2G01830 52.5 3.8e-267 918.7
Cma02g00221 . 329 1267 Histidine Kinase Gene Family AT2G01830 50.7 7.8e-260 894.4
Cma01g01683 CCT 1 992 Histidine Kinase Gene Family AT5G10720 57.2 4.8e-290 994.6
Cma09g00387 CCT 1 996 Histidine Kinase Gene Family AT5G10720 56.2 2.0e-288 989.2
Cma05g00948 . 1 1120 Histidine Kinase Gene Family AT1G09570 79.4 0.0e+00 1817.7
Cma12g00705 . 1 1114 Histidine Kinase Gene Family AT1G09570 71.0 0.0e+00 1617.8
Cma19g00854 . 18 1087 Histidine Kinase Gene Family AT1G09570 53.8 0.0e+00 1171.0
Cma14g01590 CST 35 1078 Histidine Kinase Gene Family AT1G09570 53.6 0.0e+00 1155.2
Cma06g01564 CST 29 1123 Histidine Kinase Gene Family AT1G09570 52.5 0.0e+00 1155.2
Cma14g01590 CST 13 1041 Histidine Kinase Gene Family AT2G18790 77.1 0.0e+00 1620.1
Cma06g01564 CST 28 1064 Histidine Kinase Gene Family AT2G18790 77.2 0.0e+00 1610.9
Cma13g00567 CST 3 1047 Histidine Kinase Gene Family AT2G18790 59.2 0.0e+00 1227.6
Cma18g00452 CST 31 1051 Histidine Kinase Gene Family AT2G18790 59.3 0.0e+00 1224.5
Cma05g00948 . 21 1054 Histidine Kinase Gene Family AT2G18790 53.4 0.0e+00 1087.0
Cma19g00854 . 26 1068 Histidine Kinase Gene Family AT2G18790 51.9 1.4e-313 1073.2
Cma12g00705 . 18 1048 Histidine Kinase Gene Family AT2G18790 50.8 6.5e-305 1044.3
Cma19g00854 . 12 1087 Histidine Kinase Gene Family AT5G35840 61.2 0.0e+00 1334.7
Cma06g01564 CST 29 1125 Histidine Kinase Gene Family AT5G35840 51.7 0.0e+00 1120.1
Cma05g00948 . 9 1114 Histidine Kinase Gene Family AT5G35840 51.8 0.0e+00 1111.7
Cma14g01590 CST 21 1080 Histidine Kinase Gene Family AT5G35840 50.8 0.0e+00 1092.8
Cma12g00705 . 9 1105 Histidine Kinase Gene Family AT5G35840 50.6 0.0e+00 1080.9
Cma06g01564 CST 32 1125 Histidine Kinase Gene Family AT4G16250 74.3 0.0e+00 1649.0
Cma14g01590 CST 30 1080 Histidine Kinase Gene Family AT4G16250 74.2 0.0e+00 1616.3
Cma13g00567 CST 29 1109 Histidine Kinase Gene Family AT4G16250 57.6 0.0e+00 1261.9
Cma18g00452 CST 38 1113 Histidine Kinase Gene Family AT4G16250 57.6 0.0e+00 1257.7
Cma05g00948 . 8 1115 Histidine Kinase Gene Family AT4G16250 53.1 0.0e+00 1137.1
Cma12g00705 . 11 1109 Histidine Kinase Gene Family AT4G16250 50.5 0.0e+00 1082.8
Cma19g00854 . 26 1087 Histidine Kinase Gene Family AT4G16250 51.5 1.9e-312 1069.3
Cma13g00567 CST 12 1110 Histidine Kinase Gene Family AT4G18130 62.9 0.0e+00 1367.8
Cma18g00452 CST 15 1130 Histidine Kinase Gene Family AT4G18130 61.5 0.0e+00 1356.3
Cma06g01564 CST 40 1123 Histidine Kinase Gene Family AT4G18130 57.2 0.0e+00 1244.6
Cma14g01590 CST 38 1078 Histidine Kinase Gene Family AT4G18130 57.3 0.0e+00 1215.3
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0002826 1 3 1 1 1 2 2 2 3 2 2 2 2 2 2 2 2 2 2 2 2 1 2 2 2 2 1 3 2 1 56
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma12g00705 Cma_Chr12 FPKM 0.383259 0.628624 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0